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THE MICHAELANGELO LAB

 

THE MIBI TEAM

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Mike Angelo, MD PhD

Principal Investigator

B.S. University of Mississippi

M.D. Ph.D. Duke University

Residency in Clinical Pathology, UCSF

mangelo0(at)stanford.edu

Mike's academic background spans across the fields of physics, biochemistry, electrical engineering, and medicine. During his residency  he became interested in developing novel methods for immunohistochemical multiplexing using mass spectrometry leading to the development of MIBI during his postdoctoral work in the Nolan lab at Stanford University. Mike is now interested in optimizing MIBI and other mass reporter-based technologies further with the goal of identifying new transcriptional and translational signatures in solid tissue malignancies, and in allergic and other immunological disorders that can be used to improve clinical diagnosis and treatment

Staff

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Marc Bosse, PhD

Senior Staff Scientist

B.Sc. Microbiology, University of Montreal

M.Sc. Microbiology & Immunology, University of Montreal

Ph.D. Experimental Medicine, Laval University, Canada

Postdoctoral fellow, Robarts Research Institute | Postdoctoral Fellow, SCC-RI, McMaster University

Research Area: Instrumentation and assay development​

mbosse(at)stanford.edu

Marc has broad experience in microbiology, human stem cell biology and asthma research. He also worked in translational research developing a production process for an advance cell therapy product. He now works closely with Drs. Angelo and Bendall on improving MIBI technology. He is responsible for the maintenance of the MIBI-TOF imager and its day-to-day operation. He is also engaged in the development and adaption of molecular techniques for MIBI.

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Ferda Filiz, MD

Staff Scientist

 

M.D. University of Genova School of Medicine

Residency in Pathology, Tulane School of Medicine and Danbury Hospital (Yale University School of Medicine affiliated program)

Research Area: Tissue pathology

ffiliz(at)stanford.edu

Ferda has nearly 12 years of industry experience where he worked as a pathologist in the clinical diagnostic division of Thermo Fisher Scientific handling IHC-related research. Ferda provides general assistance with tissue based (IHC) pathology related matters to graduate students and postdocs. He is involved in the oversight and management of our lab's contribution to the HuBMAP (Human BioMolecular Atlas Program) and CIMAC (Cancer Immune Monitoring and Analysis Centers) NIH/NCI funded consortium projects as well as the PICI (Parker Institute for Cancer Immunotherapy) glioblastoma multi-institute collaboration.

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Xiaowei (Vivian) Lu, PhD

Staff Scientist

 

B.S. Pharmaceutical Sciences, Peking University Health Science Center, China

Ph.D. Chemistry, Michigan State University

Postdoctoral fellow, National Institute of Diabetes and Digestive and Kidney Diseases

Postdoctoral fellow, Medical University of South Carolina

Research Area: Imaging mass spectrometry of N-glycans in tissue, development of new analysis technologies for complex carbohydrates

xlu50020(at)stanford.edu

Xiaowei was initially trained as an organic carbohydrate chemist and worked for NIDDK for 5 years on carbohydrate vaccines. She then moved to imaging mass spectrometry area, doing organic and enzymatic reactions on glycans in FFPE tissue. Xiaowei is now responsible for the maintenance of the timsTOF flex MALDI-2. She is also engaged in method development on glycan imaging especially with the ion mobility function in the timsTOF.

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Christine (Camacho) Fullaway

Life Science Technician II

B.S. Genetics, Molecular, & Cellular Biology, University of California, Davis
Research Area: QC development/optimization, research and project support
christinecamacho(at)stanford.edu


Christine has a broad range of research experience in industrial, academic and clinical lab settings.  Her focus in the lab is streamlining and managing the upstream MIBI workflow (including both wet and dry lab work), developing and validating lab panels, and employing MIBI technology to validate QC methods in the lab. She also manages and supports other various aspects of the lab including ordering and chem safety management, as well as contributing to the wet lab work for specific projects. Her research interests include optimizing protocols to better fit the needs of the lab, as well as integrating computational tools and the MIBI to better understand the roles of various antibodies in a variety of diseases.

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Mako Goldston

Life Science Technician I

B.S. Cell and Developmental Biology, University of California, Santa Barbara

Research Area: QC development/optimization, research support

makogold(at)stanford.edu

Mako is a recent graduate who is looking to explore and dive into the research world. Translational research has captured her interest due to its intersection between science and clinical care. She is particularly interested in Alzheimer’s pathology. Mako's role in the lab is to assist in different research projects and support the day to day operations of the lab, which includes quality control and validation of antibodies. Mako hopes to attend graduate school in the future.

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Alex Kong

Computational Staff Scientist

B.S. Computer Science, University of California, Davis

M.S. Data Science, Columbia University

Research Area: Machine learning and computational analysis

alkong(at)stanford.edu

Alex received his BS computer science from the University of California, Davis and his MS in data science at Columbia University. He first became interested in working with medical data at ViDi Lab under Dr. Kwan-Liu Ma, where he developed analysis pipelines for patient vitals datasets. While at Columbia, Alex worked at INCITE under Dr. Peter Bearman, where he specialized in NLP and network analysis of university-level syllabi, mission statements, and application networks. Alex reached his goal of working in the medical field at Angelo Lab, where he is developing machine learning algorithms and analysis tools for MIBI-scanned data. In his spare time, Alex enjoys the piano, tennis, and hiking.

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Sricharan Reddy Varra

Computational Staff Scientist

B.A. Computer Science, University of Colorado Boulder

Research Area: Machine learning and computational analysis

srivarra(at)stanford.edu

While at C.U Boulder, Sri gained an appreciation for computational and mathematical biology. During his time there, he collaborated with C.U.‘s UX team on applying quantitative methods for analyzing students’ reviews on their web portal. Sri is working towards developing image analysis tools for MIBI data, improving the existing software engineering pipelines, and improving the user experience. In my spare time, he enjoys cycling and creating digital 3D art.

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Cami Sowers

Computational Staff Scientist

B.S. Applied Mathematics, University of California, Los Angeles
M.S. Mathematics, California State Polytechnic University, Pomona

Research Area: Computational analysis

csowers(at)stanford.edu

Cami received her BS in applied mathematics and computing from UCLA and then her MS in mathematics, with an emphasis in statistics, from Cal Poly Pomona. Completing her master’s thesis on COVID-19 data and interning at Berkeley Lab both sparked further interest in research and computational biology. Cami spends her time developing analysis tools for MIBI data.

Postdoctoral Fellows

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Inna Averbukh, PhD

Postdoctoral Fellow, The Israel National Postdoctoral Award Program for Advancing Women in Science

B.Sc. Physics, The Technion - Israel Institute of Technology
B.Sc. Computer Science, The Technion - Israel Institute of Technology
M.Sc. Biological Physics, Weizmann Institute of Science, Israel
Ph.D. Biological Physics, Weizmann Institute of Science, Israel

Research Area: Maternal immune tolerance

innaa(at)stanford.edu

During Inna's PhD, she worked in the labs of Naama Barkai and Benny Shilo at the Weizmann Institute where she combined theoretical analysis with experimental validation to unravel the mechanisms responsible for robust patterning of embryos. In her post doc in the Itzkovitz lab at the Weizmann Institute, she combined single-cell RNA sequencing with spatial bulk transcriptomics to reconstruct a spatial atlas of gene expression by rare epithelial cells in the gut. In her current post doc in the Angelo lab, she is leveraging MIBI to explore spatio-temporal interactions at the maternal-fetal interface,  which promotes maternal immune tolerance and successful pregnancy.  
 

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Rashmi Kumar, PhD

Postdoctoral Fellow

B.Sc. Chemistry, Presidency College, India

M.Sc. Organic Chemistry, Indian Institute of Technology Madras

Ph.D. Analytical-Organic Chemistry, Purdue University

Research Area: Methods development in MIBI, ductal cell carcinoma in situ
rashmi23(at)stanford.edu

It is widely accepted that genomic changes in DNA and RNA are often major drivers of cancer progression. However, very few methods exist where protein epitopes and DNA and/or RNA can be detected simultaneously. Rashmi is developing in-situ hybridization techniques such that RNA transcripts and chromosomal copy numbers can be detected using multiplexed ion beam imaging mass spectrometry. Using these techniques, she plans to explore copy number alterations associated with risk stratification and invasiveness of DCIS. These techniques will also allow identification of genomic drivers responsible for phenotypic variation in tumor-immune microenvironment.

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Hadeesha Piyadasa, PhD

Postdoctoral Fellow, Canadian Institutes of Health Research Fellowship

Co-advisor: Dr. Sean Bendall

B.Sc. Biochemistry, University of Manitoba, Canada
Ph.D. Immunology, University of Manitoba, Canada

Research Area: Glial tumor microenvironment in response to immunotherapy
piyadasa(at)stanford.edu

Hadeesha completed his PhD at the University of Manitoba (Dr. Neeloffer Mookherjee’s lab) where he used animal models and multiomic approaches to study the use of synthetic immunoregulatory peptides in airway inflammation. For his postdoc at the Angelo and Bendall lab, he is leveraging MIBI to generate a comprehensive understanding of the TME and the antigenic heterogeneity of glial tumors from pediatric and adult patients in response to conventional, vaccine, checkpoint inhibitor, and cellular therapies.

Graduate Students

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Noah Greenwald

Graduate Student, Cancer Biology, Stanford Graduate Fellowship, NIH F31 Fellowship, NIH F99/K00 Fellowship

Co-Advisor: Dr. Christina Curtis

B.A. Biophysics, Harvard University

Research Area: Computational image analysis and cancer biology

nfgreen(at)stanford.edu

Noah received his BA in Biophysics from Harvard University. He then worked for two years at Harvard Medical School and the Broad Institute in the labs of Drs. Rameen Beroukhim and Ian Dunn studying the genomics of brain tumors. Noah is interested in combining multiplexed imaging techniques with genomics to understand the tumor microenvironment and response to therapy. He also works on developing tools for cell segmentation and computational analysis.

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Candace Liu

Graduate Student, Immunology, Stanford Graduate Fellowship, NIH F31 Fellowship

B.S. Chemical & Biomolecular Engineering, Johns Hopkins University

Research Area: Computational image analysis and HIV

cliu72(at)stanford.edu

After finishing her undergraduate degree at Johns Hopkins, Candace worked at the National Institutes of Health for two years in the Laboratory of Immune System Biology under Dr. John Tsang, where she became interested in systems immunology and computational biology. She is interested in combining MIBI with genomics and/or epigenomics data to study latent viral reservoirs in HIV infection. She is also interested in building machine learning tools for image analysis.

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Erin Soon

Graduate Student, Immunology, National Science Scholarship, A*STAR

B.Sc. Pharmacology, Imperial College London

Research Area: Placenta immunobiology

erinsoon(at)stanford.edu

Erin first became interested in fetal immunology while working with Florent Ginhoux at the Singapore Immunology Network during her undergraduate days. She subsequently dabbled in translational immunotherapy for chronic wounds and zebrafish genetics before deciding that she wanted to return to exploring the immune interactions at play during pregnancy. She is leveraging MIBI and complementary single cell analyses to interrogate the mechanisms of immune tolerance at the maternal-fetal interface. 

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Ke Leow

Graduate Student, Cancer Biology, National Science Scholarship, A*STAR

B.Sc. in Biochemistry, Imperial College London

Research Area: Post-translational modifications and cancer biology

kxleow(at)stanford.edu

Through her undergraduate studies in Imperial College London, Ke found strong interest in systems biology and omics technologies. She performed mass spectrometry analysis of glycans in human platelets during her final year project in Dr Anne Dell’s and Dr Stuart Haslam’s lab. Then, she worked for a year in the metabolomics group at Bioprocessing Technology Institute in Singapore. Ke is now interested in studying the effects of glycosylation on cancer immunotherapy using MIBI. She also hopes to develop tools for imaging glycoproteins.

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Alea Delmastro

Graduate Student, Immunology

Co-Advisor: Dr. Prasanna Jagannathan

B.S. Chemical Engineering, Stanford University
M.S. Biomedical Informatics, Stanford University
Research Area: Malaria in pregnancy
alead(at)stanford.edu

 

Alea is interested in studying infectious disease, specifically relating to malaria. In malaria-endemic settings, pregnant women are highly susceptible to severe Plasmodium falciparum (Pf) infection, which can result in placental malaria as well as adverse birth outcomes. Utilizing multiplexed ion beam imaging and other single cell methods, Alea aims to characterize the immune cell infiltrate during placental malaria and better understand the response to Pf at the maternal-fetal interface.

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Potchara Boonrat

Graduate Student, Immunology, Baker International Fellowship, Anandamahidol Foundation Scholarship

B.Sc. Biology, Chulalongkorn University

Research Area: Tuberculosis

potchara(at)stanford.edu

Potchara earned his B.Sc. in Biology from Chulalongkorn University where he worked on the development of chimeric antigen receptor (CAR) T cells for Epstein-Barr virus-related cancers. During his undergraduate studies, he became interested in how pathogens evade the immune system. Potchara is currently employing MIBI to investigate the mechanism of Mycobacterium tuberculosis (TB)-mediated immune tolerance in the lymph node.

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Cameron Walker

Graduate Student, Cancer Biology

B.Sc. Biomedical Engineering, Duke University
M.S. Bioengineering, UC San Diego

Research Area: Tumor immunology, metastasis

cwalker8(at)stanford.edu

Cameron completed his BSc in Biomedical Engineering from Duke University and his MS in Bioengineering from UC San Diego. After graduating, Cameron began working at a clinical stage immunotherapy start-up, where he developed a passion for understanding the mechanisms by which cancer evades immune detection. He is currently employing MIBI and other single cell methods to examine the local and systemic immunological effects of lymph node metastasis. 

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Jodie Lunger

Graduate Student, Genetics

B.Sc in Pharmacology, The University of Toronto

Research Area: Maternal-fetal immunology

jclunger(at)stanford.edu

Jodie completed her undergrad at the University of Toronto while working in the lab of Dr. James Eubanks’ to better understand the neurodevelopmental disorder Rett Syndrome. Before joining Stanford Genetics, she spent 2 years studying RNA modifications in cancer at the NIH in the lab of Dr. Pedro Batista. In the Angelo lab, she is interested in the relationship between expression of endogenous retroviruses and immune tolerance at the fetal-maternal interface.

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Lorenz Rumberger

Visiting Student Researcher, Charité University Hospital | Max Delbrück Center for Molecular Medicine, Berlin

B.Sc Economics, Hamburg University
M.Sc. Information Systems, Humboldt University Berlin

Research Area: Computational image analysis and cancer biology

jlrumber(at)stanford.edu

After finishing his masters degree at Humboldt University, Lorenz started as a PhD Candidate in the CompCancer Graduate School and Dagmar Kainmuellers Lab at Max Delbrück Center. He works on computational methods for pathology image analysis to better understand the effects of spatial heterogeneity on clinical outcomes of cancer. During his visit in our Lab, he develops computational tools for our multiplexed image analysis pipeline.

LAB ALUMNI

Erin McCaffrey, PhD

Current Position: Postdoctoral fellow, Mark Davis Lab, Stanford University

Adam Kagel

Current Position: PhD student, UC San Diego, Biophysics

Brian Collica

Current Position: Data Scientist, Amazon

Tyler Risom, PhD

Current Position: Senior Scientist, Department of Research Pathology, Genentech

Alex Baranski

Current Position: PhD student, Okinawa Institute of Science and Technology

Ariane Blank

Shirley Greenbaum, MD

Current Position: Division of OBGYN, Hadassah University Medical Center

Leeat Keren, PhD

Current Position: Principal Investigator, Weizmann Institute of Science

Roshan Angoshtari, PhD

Selena Ferrian, PhD

Current Position: Technology Development Manager, Data Science, Genentech

Diana Marquez

Current Position: Research Associate, Spitzer Lab, UCSF

Harris Fienberg, PhD

Current Position: CEO of Ionpath

Jennifer Wang

Current Position: Medical Student, University of Southern California